The plasticity of global proteome and genome expression analyzed in closely related W3110 and MG1655 strains of a well-studied model organism, Escherichia coli-K12

Vijayendran C, Polen T, Wendisch VF, Friehs K, Niehaus K, Flaschel E (2007)
Journal of Biotechnology 128(4): 747-761.

Journal Article | Published | English

No fulltext has been uploaded

Author
Abstract
The use of Escherichia coli as a model organism has provided a great deal of basic information in biomolecular sciences. Examining trait differences among closely related strains of the same species addresses a fundamental biological question: how much diversity is there at the single species level? The main aim of our research was to identify significant differences in the activities of groups of genes between two laboratory strains of an organism closely related in genome structure. We demonstrate that despite strict and controlled growth conditions, there is high plasticity in the global proteome and genome expression in two closely related E. coli K12 sub-strains (W3110 and MG1655), which differ insignificantly in genome structure. The growth patterns of these two sub-strains were very similar in a well-equipped bioreactor, and their genome structures were shown to be almost identical by DNA microarray. However, detailed profiling of protein and gene expression by 2-dimensional a gel electrophoresis and microarray analysis showed many differentially expressed genes and proteins, combinations of which were highly correlated. The differentially regulated genes and proteins belonged to the following functional categories: genes regulated by sigma subunit of RNA polymerase (RpoS), enterobactin-related genes, and genes involved in central metabolism. C Genes involved in central cell metabolism - the glycolysis pathway, the tricarboxylic acid cycle and the glyoxylate bypass - were differentially regulated at both the mRNA and proteome levels. The strains differ significantly in central metabolism and thus in the generation of precursor metabolites and energy. This high plasticity probably represents a universal feature of metabolic activities in closely related species, and has the potential to reveal differences in regulatory networks. We suggest that unless care is taken in the choice of strains for any validating experiment, the results might be misleading. (c) 2007 Elsevier B.V. All rights reserved.
Publishing Year
ISSN
PUB-ID

Cite this

Vijayendran C, Polen T, Wendisch VF, Friehs K, Niehaus K, Flaschel E. The plasticity of global proteome and genome expression analyzed in closely related W3110 and MG1655 strains of a well-studied model organism, Escherichia coli-K12. Journal of Biotechnology. 2007;128(4):747-761.
Vijayendran, C., Polen, T., Wendisch, V. F., Friehs, K., Niehaus, K., & Flaschel, E. (2007). The plasticity of global proteome and genome expression analyzed in closely related W3110 and MG1655 strains of a well-studied model organism, Escherichia coli-K12. Journal of Biotechnology, 128(4), 747-761.
Vijayendran, C., Polen, T., Wendisch, V. F., Friehs, K., Niehaus, K., and Flaschel, E. (2007). The plasticity of global proteome and genome expression analyzed in closely related W3110 and MG1655 strains of a well-studied model organism, Escherichia coli-K12. Journal of Biotechnology 128, 747-761.
Vijayendran, C., et al., 2007. The plasticity of global proteome and genome expression analyzed in closely related W3110 and MG1655 strains of a well-studied model organism, Escherichia coli-K12. Journal of Biotechnology, 128(4), p 747-761.
C. Vijayendran, et al., “The plasticity of global proteome and genome expression analyzed in closely related W3110 and MG1655 strains of a well-studied model organism, Escherichia coli-K12”, Journal of Biotechnology, vol. 128, 2007, pp. 747-761.
Vijayendran, C., Polen, T., Wendisch, V.F., Friehs, K., Niehaus, K., Flaschel, E.: The plasticity of global proteome and genome expression analyzed in closely related W3110 and MG1655 strains of a well-studied model organism, Escherichia coli-K12. Journal of Biotechnology. 128, 747-761 (2007).
Vijayendran, Chandran, Polen, Tino, Wendisch, Volker F., Friehs, Karl, Niehaus, Karsten, and Flaschel, Erwin. “The plasticity of global proteome and genome expression analyzed in closely related W3110 and MG1655 strains of a well-studied model organism, Escherichia coli-K12”. Journal of Biotechnology 128.4 (2007): 747-761.
This data publication is cited in the following publications:
This publication cites the following data publications:

11 Citations in Europe PMC

Data provided by Europe PubMed Central.

Role of L-alanine for redox self-sufficient amination of alcohols.
Klatte S, Wendisch VF., Microb. Cell Fact. 14(), 2015
PMID: 25612558
The effect of the rpoSam allele on gene expression and stress resistance in Escherichia coli.
Galbiati HF, Taschner NP, Spira B., Arch. Microbiol. 196(8), 2014
PMID: 24862098
Aerobic expression of Vitreoscilla hemoglobin efficiently reduces overflow metabolism in Escherichia coli.
Pablos TE, Sigala JC, Le Borgne S, Lara AR., Biotechnol J 9(6), 2014
PMID: 24677798
Nitrogen and carbon status are integrated at the transcriptional level by the nitrogen regulator NtrC in vivo.
Schumacher J, Behrends V, Pan Z, Brown DR, Heydenreich F, Lewis MR, Bennett MH, Razzaghi B, Komorowski M, Barahona M, Stumpf MP, Wigneshweraraj S, Bundy JG, Buck M., MBio 4(6), 2013
PMID: 24255125
The evolution of metabolic networks of E. coli.
Baumler DJ, Peplinski RG, Reed JL, Glasner JD, Perna NT., BMC Syst Biol 5(), 2011
PMID: 22044664
Assessment of the diversity of dairy Lactococcus lactis subsp. lactis isolates by an integrated approach combining phenotypic, genomic, and transcriptomic analyses.
Tan-a-ram P, Cardoso T, Daveran-Mingot ML, Kanchanatawee S, Loubiere P, Girbal L, Cocaign-Bousquet M., Appl. Environ. Microbiol. 77(3), 2011
PMID: 21131529
Transcriptional effects of CRP* expression in Escherichia coli.
Khankal R, Chin JW, Ghosh D, Cirino PC., J Biol Eng 3(), 2009
PMID: 19703305
Comparison between Escherichia coli K-12 strains W3110 and MG1655 and wild-type E. coli B as platforms for xylitol production.
Khankal R, Luziatelli F, Chin JW, Frei CS, Cirino PC., Biotechnol. Lett. 30(9), 2008
PMID: 18414795
Application of proteomics in biotechnology--microbial proteomics.
Josic D, Kovac S., Biotechnol J 3(4), 2008
PMID: 18320565
The ygaVP genes of Escherichia coli form a tributyltin-inducible operon.
Gueune H, Durand MJ, Thouand G, DuBow MS., Appl. Environ. Microbiol. 74(6), 2008
PMID: 18245262

57 References

Data provided by Europe PubMed Central.

Functional genomics: expression analysis of Escherichia coli growing on minimal and rich media.
Tao H, Bausch C, Richmond C, Blattner FR, Conway T., J. Bacteriol. 181(20), 1999
PMID: 10515934
MAPMAN: a user-driven tool to display genomics data sets onto diagrams of metabolic pathways and other biological processes.
Thimm O, Blasing O, Gibon Y, Nagel A, Meyer S, Kruger P, Selbig J, Muller LA, Rhee SY, Stitt M., Plant J. 37(6), 2004
PMID: 14996223
Nitrogen regulatory protein C-controlled genes of Escherichia coli: scavenging as a defense against nitrogen limitation
Zimmer, Proc. Natl.Acad. Sci. U.S.A. 97(), 2000

Export

0 Marked Publications

Open Data PUB

Web of Science

View record in Web of Science®

Sources

PMID: 17331609
PubMed | Europe PMC

Search this title in

Google Scholar